AFNI version info (
Precompiled binary macos_13_ARM_clang: Dec 7 2023 (Version AFNI_23.3.10 'Septimius Severus')
Hi experts and @ptaylor,
I recently tried to analyze my task-fMRI data with 3dMSS to extract more results in white matter. I have pre-processed the EPI and anatomy data in subject level by "afni_proc.py" and generated the beta effect image for each subject. I also performed group comparisons between the normal group and patients group by 3dttest++.
I have read the 3dMSS article (BOLD Response is more than just magnitude: Improving detection sensitivity through capturing hemodynamic proﬁles), example code (AFNI GitHub) and 3dMSS help(AFNI homepage). However, I am still not sure how to deal with my data with 3dMSS. Should I use 3dMSS process the data which has been pre-processed by afni_proc.py (including tshift align tlrc volreg mask blur scale regress blocks)? But according to my understanding, modeling the HRF with smooth splines should use the 4D data, which has been removed in the result of afni_proc.py. Or Should I only pre-process the data with the "tshift align tlrc volreg mask blur scale"blocks ? I am confused with the analysis flow with 3dMSS.
By the way, I found an 3dMSS option "-bounds", which was not used in "afni_proc.py". What is the function of this option? Should I use the same parameter [-2 2] as the example.